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FunGene: 08-OCT-2024

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus JSNZ
  • locus tag: JSNZ_001829
  • pan locus tag?: SAUPAN004756000
  • symbol: hemY
  • pan gene symbol?: hemY
  • synonym:
  • product: protoporphyrinogen oxidase

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: JSNZ_001829
  • symbol: hemY
  • product: protoporphyrinogen oxidase
  • replicon: chromosome
  • strand: -
  • coordinates: 1867152..1868552
  • length: 1401
  • essential: unknown other strains

⊟Accession numbers[edit | edit source]

  • Gene ID:
  • RefSeq:
  • BioCyc:
  • MicrobesOnline:

⊟Phenotype[edit | edit source]

Share your knowledge and add information here. [edit]

⊟DNA sequence[edit | edit source]

  • 1
    61
    121
    181
    241
    301
    361
    421
    481
    541
    601
    661
    721
    781
    841
    901
    961
    1021
    1081
    1141
    1201
    1261
    1321
    1381
    GTGACTAAATCAGTGGCTATTATAGGAGCGGGGATAACAGGTTTATCAAGTGCATATTTT
    TTAAAACAGCAAGATCCTAATATTGATGTAACCATCTTTGAAGCATCGAATCGTCCGGGG
    GGAAAGATTCAATCGTATCGTAAAGATGGTTATATGATTGAACTAGGGCCTGAATCTTAT
    TTAGGTAGAAAAACGATTATGACAGAATTAGCGAAAGATATTGGATTAGAACAAGATATT
    GTTACAAATACGACTGGACAATCATATATTTTTGCGAAAAATAAATTATATCCGATTCCA
    GGTGGTTCAATTATGGGTATTCCAACAGATATTAAACCATTTGTTACTACAAAATTAATA
    TCGCCACTTGGTAAATTAAGAGCAGGATTAGATTTAATCAAAAAGCCTATACAAATGCAA
    GATGGTGACATTTCTGTTGGTGCATTTTTCAGAGCAAGATTAGGTAATGAGGTACTTGAG
    AACTTAATTGAGCCTTTAATGGGTGGTATTTATGGTACCGATATTGATAAATTAAGTTTG
    ATGAGTACGTTTCCTAATTTTAAAGAAAAAGAAGAGGCATTCGGAAGTCTGATAAAAGGT
    ATGAAGGATGAGAAAAATAAGCGTCTGAAACAAAGACAATTATATCCTGGCGCACCAAAA
    GGACAATTCAAACAATTTAAGCATGGTTTAAGCTCATTTATTGAAGCATTAGAACAAGAT
    GTGAAAAATAAAGGTGTGACAATACGCTACAATACGTCAGTGGATGATATTATTACATCT
    CAAAAACAATATAAAATTGTTTACAATGATCAACTAGAAGAAGTGTATGATGGCGTATTA
    GTAACGACACCGCATCAAGTCTTTTTGAATTGGTTCGGACAAGATCCAGCATTTGATTAC
    TTTAAAACGATGGATAGTACGACTGTTGCAACTGTTGTATTGGCATTTGATGAAAAAGAT
    ATTGAAAATACTTATGATGGTACTGGCTTCGTGATTGCGAGAACGAGTGATACAGACATT
    ACCGCATGTACTTGGACATCGAAAAAATGGCCATTTACTACACCAGAAGGTAAGGTTTTG
    ATTCGTGCGTATGTAGGTAAACCAGGTGATACTGTGGTTGATGATCATACAGATAATGAA
    TTAGTATCGATTGTACGTAGAGATTTAAGTCAAATGATGACATTTAAAGGCGATCCTGAA
    TTTACAATTGTCAATCGTTTGCCGAAAAGTATGCCACAGTACCATGTTGGTCACATTCAA
    CAAATTAGACAGATTCAAGCACATATTAAACAAACATATCCACGACTTAGAGTAACTGGT
    GCATCTTTTGAAGCGGTTGGACTACCTGATTGTATTACGCAAGGTAAAGTTGCTGCTGAA
    GAAGTAATCGCAGAGTTGTAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1080
    1140
    1200
    1260
    1320
    1380
    1401

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: JSNZ_001829
  • symbol: HemY
  • description: protoporphyrinogen oxidase
  • length: 466
  • theoretical pI: 6.80781
  • theoretical MW: 51987.2
  • GRAVY: -0.297425

⊟Function[edit | edit source]

  • reaction:
    EC 1.3.3.4?  ExPASy
    Protoporphyrinogen oxidase Protoporphyrinogen-IX + 3 O2 = protoporphyrin-IX + 3 H2O2
  • TIGRFAM:
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Heme, porphyrin, and cobalamin protoporphyrinogen oxidase (TIGR00562; EC 1.3.3.4; HMM-score: 384)
    and 23 more
    squalene-associated FAD-dependent desaturase (TIGR03467; HMM-score: 58)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Other phytoene desaturase (TIGR02734; EC 1.14.99.-; HMM-score: 44.2)
    9,9'-di-cis-zeta-carotene desaturase (TIGR02732; EC 1.3.5.6; HMM-score: 38.9)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Other C-3',4' desaturase CrtD (TIGR02733; EC 1.3.99.-; HMM-score: 29.9)
    Unknown function Enzymes of unknown specificity flavoprotein, HI0933 family (TIGR00275; HMM-score: 29.3)
    putative selenate reductase, YgfK subunit (TIGR03315; HMM-score: 22.1)
    putative aminophosphonate oxidoreductase (TIGR03329; HMM-score: 21.4)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Other phytoene desaturase (TIGR02731; EC 1.14.99.-; HMM-score: 19.8)
    Genetic information processing Protein synthesis tRNA and rRNA base modification tRNA U-34 5-methylaminomethyl-2-thiouridine biosynthesis protein MnmC, C-terminal domain (TIGR03197; HMM-score: 19.8)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Thiamine glycine oxidase ThiO (TIGR02352; EC 1.4.3.19; HMM-score: 17.5)
    Metabolism Amino acid biosynthesis Glutamate family glutamate synthase (NADPH), homotetrameric (TIGR01316; EC 1.4.1.13; HMM-score: 16.9)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Thiamine thiazole biosynthesis enzyme (TIGR00292; HMM-score: 16.6)
    glutamate synthase, NADH/NADPH, small subunit (TIGR01317; EC 1.4.1.-; HMM-score: 16.5)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Other carotene isomerase (TIGR02730; EC 5.-.-.-; HMM-score: 15.3)
    dihydrolipoyl dehydrogenase (TIGR01350; EC 1.8.1.4; HMM-score: 14.3)
    Metabolism Energy metabolism Electron transport flavocytochrome c (TIGR01813; HMM-score: 14.2)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Menaquinone and ubiquinone ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family (TIGR01988; EC 1.14.13.-; HMM-score: 14.1)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Menaquinone and ubiquinone 2-polyprenyl-6-methoxyphenol 4-hydroxylase (TIGR01984; EC 1.14.13.-; HMM-score: 13.4)
    FAD dependent oxidoreductase TIGR03364 (TIGR03364; HMM-score: 12.8)
    flavin-dependent oxidoreductase, MSMEG_0569 family (TIGR04046; HMM-score: 12.4)
    Cellular processes Cellular processes Detoxification CoA-disulfide reductase (TIGR03385; EC 1.8.1.14; HMM-score: 12.1)
    lycopene cyclase (TIGR01789; HMM-score: 11.2)
    mycofactocin system FadH/OYE family oxidoreductase 2 (TIGR03997; EC 1.-.-.-; HMM-score: 10.9)
  • TheSEED: data available for COL, N315, NCTC8325, Newman, USA300_FPR3757
  • PFAM:
    NADP_Rossmann (CL0063) Amino_oxidase; Flavin containing amine oxidoreductase (PF01593; HMM-score: 195.5)
    and 16 more
    NAD_binding_8; NAD(P)-binding Rossmann-like domain (PF13450; HMM-score: 54.6)
    DAO; FAD dependent oxidoreductase (PF01266; HMM-score: 42.7)
    Pyr_redox_2; Pyridine nucleotide-disulphide oxidoreductase (PF07992; HMM-score: 33.3)
    MCRA; MCRA family (PF06100; HMM-score: 29.5)
    Pyr_redox; Pyridine nucleotide-disulphide oxidoreductase (PF00070; HMM-score: 27.5)
    HI0933_like; HI0933-like protein Rossmann domain (PF03486; HMM-score: 26.4)
    Thi4; Thi4 family (PF01946; HMM-score: 25.4)
    NAD_binding_9; FAD-NAD(P)-binding (PF13454; HMM-score: 24.8)
    MurF-HprK_N (CL0365) MurD-like_N; Mur ligase MurD-like, N-terminal domain (PF21799; HMM-score: 18.5)
    NADP_Rossmann (CL0063) Pyr_redox_3; Pyridine nucleotide-disulphide oxidoreductase (PF13738; HMM-score: 15)
    Mqo; Malate:quinone oxidoreductase (Mqo) (PF06039; HMM-score: 13.6)
    FAD_binding_2; FAD binding domain (PF00890; HMM-score: 13.3)
    no clan defined DUF6261; Family of unknown function (DUF6261) (PF19775; HMM-score: 13.3)
    NADP_Rossmann (CL0063) Glu_dehyd_C; Glucose dehydrogenase C-terminus (PF16912; HMM-score: 12.1)
    FAD_binding_3; FAD binding domain (PF01494; HMM-score: 11.8)
    Lycopene_cycl; Lycopene cyclase protein (PF05834; HMM-score: 11.7)

⊟Structure, modifications & cofactors[edit | edit source]

  • domains:
  • modifications:
  • cofactors:
  • effectors:

⊟Localization[edit | edit source]

  • PSORTb: Cytoplasmic
    • Cytoplasmic Score: 9.89
    • Cytoplasmic Membrane Score: 0.09
    • Cellwall Score: 0.01
    • Extracellular Score: 0.02
    • Internal Helices: 0
  • DeepLocPro: Cytoplasmic
    • Cytoplasmic Score: 0.6325
    • Cytoplasmic Membrane Score: 0.3579
    • Cell wall & surface Score: 0.0012
    • Extracellular Score: 0.0084
  • LocateP:
  • SignalP: no predicted signal peptide
    • SP(Sec/SPI): 0.117609
    • TAT(Tat/SPI): 0.003309
    • LIPO(Sec/SPII): 0.047559
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

  • GI:
  • RefSeq:
  • UniProt:

⊟Protein sequence[edit | edit source]

  • MTKSVAIIGAGITGLSSAYFLKQQDPNIDVTIFEASNRPGGKIQSYRKDGYMIELGPESYLGRKTIMTELAKDIGLEQDIVTNTTGQSYIFAKNKLYPIPGGSIMGIPTDIKPFVTTKLISPLGKLRAGLDLIKKPIQMQDGDISVGAFFRARLGNEVLENLIEPLMGGIYGTDIDKLSLMSTFPNFKEKEEAFGSLIKGMKDEKNKRLKQRQLYPGAPKGQFKQFKHGLSSFIEALEQDVKNKGVTIRYNTSVDDIITSQKQYKIVYNDQLEEVYDGVLVTTPHQVFLNWFGQDPAFDYFKTMDSTTVATVVLAFDEKDIENTYDGTGFVIARTSDTDITACTWTSKKWPFTTPEGKVLIRAYVGKPGDTVVDDHTDNELVSIVRRDLSQMMTFKGDPEFTIVNRLPKSMPQYHVGHIQQIRQIQAHIKQTYPRLRVTGASFEAVGLPDCITQGKVAAEEVIAEL

⊟Experimental data[edit | edit source]

  • experimentally validated: data available for COL, NCTC8325
  • protein localization: data available for COL
  • quantitative data / protein copy number per cell:
  • interaction partners:

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

⊟Regulation[edit | edit source]

  • regulator: PerR (repression) regulon
    PerR(TF)important in Oxidative stress response;  regulation predicted or transferred from N315 and NCTC 8325  [2]

⊟Transcription pattern[edit | edit source]

⊟Protein synthesis (provided by Aureolib)[edit | edit source]

⊟Protein stability[edit | edit source]

  • half-life: no data available

⊟Biological Material[edit | edit source]

⊟Mutants[edit | edit source]

⊟Expression vector[edit | edit source]

⊟lacZ fusion[edit | edit source]

⊟GFP fusion[edit | edit source]

⊟two-hybrid system[edit | edit source]

⊟FLAG-tag construct[edit | edit source]

⊟Antibody[edit | edit source]

⊟Other Information[edit | edit source]

You can add further information about the gene and protein here. [edit]

⊟Literature[edit | edit source]

⊟References[edit | edit source]

  1. ↑ Blanca Taboada, Karel Estrada, Ricardo Ciria, Enrique Merino
    Operon-mapper: a web server for precise operon identification in bacterial and archaeal genomes.
    Bioinformatics: 2018, 34(23);4118-4120
    [PubMed:29931111] [WorldCat.org] [DOI] (I p)
  2. ↑ Hannes Wolfgramm, Larissa Milena Busch, Jöran Tebben, Henry Mehlan, Lisa Hagenau, Thomas Sura, Tilly Hoffmüller, Elisa Bludau, Manuela Gesell Salazar, Alexander Reder, Stephan Michalik, Leif Steil, Kristin Surmann, Ulrike Mäder, Silva Holtfreter, Uwe Völker
    Integrated genomic and proteomic analysis of the mouse-adapted Staphylococcus aureus strain JSNZ.
    Curr Res Microb Sci: 2025, 9;100489
    [PubMed:41146725] [WorldCat.org] [DOI] (I e)

⊟Relevant publications[edit | edit source]

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